TB-Profiler result

Run: SRR13837837

Summary

Run ID: SRR13837837

Sample name:

Date: 03-04-2023 09:19:44

Number of reads: 146967

Percentage reads mapped: 95.03

Strain: lineage4.9

Drug-resistance: Sensitive


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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 5624 p.Asn129Asp missense_variant 1.0
mshA 575194 c.-154G>T upstream_gene_variant 1.0
rpoB 760907 c.1101_1102insT frameshift_variant 1.0
rplC 801226 p.Gly140Arg missense_variant 1.0
embR 1417503 c.-156A>C upstream_gene_variant 1.0
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.33
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.33
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.33
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.29
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.29
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.29
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.29
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.29
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.5
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.5
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.4
rrl 1476753 n.3099delG non_coding_transcript_exon_variant 1.0
fabG1 1673233 c.-207T>G upstream_gene_variant 1.0
rpsA 1833593 c.53delC frameshift_variant 1.0
rpsA 1834884 p.Gln448Leu missense_variant 1.0
ndh 2101981 c.1062C>T synonymous_variant 0.18
PPE35 2169282 p.Arg444His missense_variant 1.0
ahpC 2725932 c.-261G>A upstream_gene_variant 1.0
pepQ 2859739 p.Ala227Gly missense_variant 1.0
pepQ 2860197 c.222T>C synonymous_variant 1.0
Rv3083 3448909 p.Leu136Ile missense_variant 1.0
fbiA 3641204 p.Gly221Asp missense_variant 1.0
clpC1 4039961 p.Tyr248* stop_gained 1.0
embC 4240818 p.Thr319Arg missense_variant 1.0
embB 4248081 c.1569dupG frameshift_variant 1.0
ethA 4327644 c.-171G>A upstream_gene_variant 1.0